Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,305,340 |
A→C |
34.5% |
L82L (CTA→CTC) |
priA → |
primosome factor n' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,305,340 | 0 | A | C | 34.5%
| 41.2
/ 44.7
| 58 | L82L (CTA→CTC) | priA | primosome factor n' |
| Reads supporting (aligned to +/- strand): ref base A (9/29); new base C (14/6); total (23/35) |
| Fisher's exact test for biased strand distribution p-value = 1.49e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.74e-01 |
TAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGATTTTAC > minE/2305282‑2305404
|
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTTCTATGGGCGGCAg < 1:908675/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:919643/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:2225559/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:2538082/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:3006170/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:394900/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:402907/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:449342/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:473086/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:132684/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:703774/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:848593/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:1115706/69‑1 (MQ=255)
tAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGAGATTGCTGCTATGGGCGGCAg < 1:2923824/69‑1 (MQ=255)
gTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGAt < 1:1417541/69‑1 (MQ=255)
gTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGAt < 1:531812/69‑1 (MQ=255)
gTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGAt < 1:2612388/69‑1 (MQ=255)
gTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGAt < 1:1926812/69‑1 (MQ=255)
gAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTAc > 1:958128/1‑69 (MQ=255)
gAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTAc < 1:1998440/69‑1 (MQ=255)
gAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTAc > 1:1269439/1‑69 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGAt > 1:635915/1‑66 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTa > 1:326420/1‑68 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTa > 1:1561454/1‑68 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTAc > 1:1294651/1‑69 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTAc > 1:1532784/1‑69 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTAc > 1:130431/1‑69 (MQ=255)
gAAGTGCTGGACGTTGAGCCGGTATTTACTCACTCTGTCTGGCGATTACTGCTCTGGGCGGCAGATTAc > 1:1752356/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:2643137/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:3085271/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:1801760/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:1296980/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:2402926/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:2327491/1‑69 (MQ=255)
gTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTat > 1:1932865/1‑69 (MQ=255)
aGTGAGCCTGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:3300133/69‑1 (MQ=255)
aGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:27990/69‑1 (MQ=255)
aGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:455315/69‑1 (MQ=255)
aGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:2078469/69‑1 (MQ=255)
gTGAGCCGGTGTTTACTCACTCCGTCTGGCGTTTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:315087/68‑1 (MQ=255)
cGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGAt < 1:1444318/47‑1 (MQ=255)
cGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCg < 1:2517913/62‑1 (MQ=255)
tACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAg < 1:1073132/38‑1 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGAtgt > 1:2967105/1‑49 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGa > 1:927279/1‑69 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGa > 1:1546218/1‑69 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGa > 1:1576928/1‑69 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGa > 1:586929/1‑69 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGa > 1:737660/1‑69 (MQ=255)
gATTACTGCTCTGGGCGGCAGATTACTATCATCATCAGATTGGCGATGTGCTGTTTCATGCATTGCCGa > 1:2982925/1‑69 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:1952846/67‑1 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:2241182/67‑1 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:22550/67‑1 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:2813866/67‑1 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:1530188/67‑1 (MQ=255)
tactgctCTGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGAttt < 1:3186437/67‑1 (MQ=255)
gctATGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGATTTtac < 1:2960491/68‑1 (MQ=255)
gctATGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGATTTtac < 1:1057879/68‑1 (MQ=255)
|
TAGTCGAAGTGCTGGATAGTGAGCCGGTGTTTACTCACTCCGTCTGGCGATTGCTGCTATGGGCGGCAGATTACTATCATCATCCGATTGGCGATGTGCTGTTTCATGCCTTGCCGATTTTAC > minE/2305282‑2305404
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
